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Review

Exploiting ING2 Epigenetic Modulation as a Therapeutic Opportunity for Non-Small Cell Lung Cancer

1
INSERM U1242, Chemistry Oncogenesis Stress and Signaling, CLCC Eugène Marquis, 35033 Rennes, France
2
CHU Rennes, Service de Pneumologie, Université de Rennes 1, 35033 Rennes, France
*
Author to whom correspondence should be addressed.
Cancers 2019, 11(10), 1601; https://doi.org/10.3390/cancers11101601
Submission received: 29 September 2019 / Accepted: 11 October 2019 / Published: 21 October 2019
(This article belongs to the Special Issue Inhibitor of Growth (ING) Genes)

Abstract

:
Non-small cell lung cancer (NSCLC) has been the leading cause of cancer-related death worldwide, over the last few decades. Survival remains extremely poor in the metastatic setting and, consequently, innovative therapeutic strategies are urgently needed. Inhibitor of Growth Gene 2 (ING2) is a core component of the mSin3A/Histone deacetylases complex (HDAC), which controls the chromatin acetylation status and modulates gene transcription. This gene has been characterized as a tumor suppressor gene and its status in cancer has been scarcely explored. In this review, we focused on ING2 and other mSin3A/HDAC member statuses in NSCLC. Taking advantage of existing public databases and known pharmacological properties of HDAC inhibitors, finally, we proposed a therapeutic model based on an ING2 biomarker-guided strategy.

1. Introduction

Lung cancer is the leading cause of cancer-related death worldwide. Among the different subtypes of lung cancer, non-small cell lung cancer (NSCLC) is the prevailing subtype, accounting for about 80% to 85% of cases. The prognosis of NSCLC is poor with a 5-year survival rate of 15% [1]. Although great therapeutic advances have been made during the last decades, patients are often diagnosed with advanced stage disease, where only palliative chemotherapy or immunotherapy is recommended. In this context, deciphering biological relevance of tumor suppressor genes in cancer, such as the inhibitor of growth gene (ING) family, is an attractive approach to develop new therapeutic breakthrough. Among this protein family of chromatin readers, ING2 and ING1 allow the recruitment of mSin3A/HDAC chromatin remodeling complex on Histone H3 trimethylated on lysine 4 marks (H3K4me3) [2,3,4]. Histone deacetylases enzymes could promote adjacent histones deacetylation that would in turn result in chromatin remodeling and regulation of gene transcription, mainly inducing transcription repression [5]. In addition, as part of the p53 pathway, ING2 is involved in diverse cellular processes that are recognized as hallmarks of cancer [6,7,8] and its deletion in mice led to spontaneous soft tissue sarcomas formation [9]. ING2 is now characterized as a tumor suppressor gene and as such, its expression is frequently altered in human tumors. In this review, we assess literature and public databases to evaluate ING2 and other mSin3A/HDAC member statuses in NSCLC, in an effort to uncover new therapeutic opportunities.

2. ING2 Modulates Transcriptional Activity Through Chromatin Remodeling

The first member of the inhibitor of growth gene (ING) family, ING1, was initially discovered through an in vivo screen based on subtractive hybridization that aimed to identify tumor suppressor genes [10]. Subsequently, an in silico sequence homology search with ING1 allowed the identification of four other members of the ING family—ING2 [11,12], ING3 [13], ING4 and ING5 [14].
ING genes are made up of multiple exons, resulting in numerous transcribed variants, thanks to alternative mRNA splicing. The ING2 gene is composed of three exons (1a, 1b, and 2) that can be alternatively spliced, thus, leading to two isoforms—ING2a and ING2b [15]. Using quantitative polymerase chain reaction (qPCR) to examine ING2a and ING2b expression level in different tissues, Unoki and colleagues found that both isoforms were ubiquitously expressed, albeit ING2a isoform expression was predominant. Moreover, as ING2b expression has only been detected at the RNA level and was never detected at the protein level, we focused this review on ING2a, which is thereafter referred to as ING2.
The nucleosome, which is the fundamental chromatin subunit, consists of two pairs of each histones H2A, H2B, H3, and H4 with DNA wrapped around this octamer. The N-terminal tail of each histones, which emerges between the gyres of the DNA superhelix [16], contains highly conserved lysine residues that are the sites for various covalent modifications, including methylation [17]. These lysine methylations form binding sites for transcriptional regulator proteins [18]. More specifically, histone H3 trimethylated on lysine 4 (H3K4me3) has been reported to be exclusively associated with active transcription, while H3K4 dimethylated (H3K4me2) occurs at both inactive and active genes [19,20]. ING2 is able to bind to these marks of active transcription, with more affinity for H3K4me3 than for H3K4me2 [2].
The biological roles of ING2 are related to its various domains (Figure 1, panel A) and more particularly, to its plant homeodomain (PHD), which is characterized by a Cys4-His-Cys3 zinc-binding motif that allows ING2 stabilization at active chromatin, through the binding to H3K4me3 [2,3]. The PHD motif of ING2 acts as a dual-specificity module that binds to phosphatidylinositol 5-phosphate (PI(5)P) [21], in addition to H3K4me3. PI(5)P also requires the polybasic region (PBR) that is located immediately after the PHD domain (Figure 1, panel A) to bind efficiently to ING2 [22] and this binding is suggested to change the ING2 sub-nuclear distribution, in order to localize it at target gene promoters [23]. This targeting is crucial for recruiting ING2-associated HDAC activity to target gene promoters. Indeed, ING2 is part of the mSin3A-HDAC complex [4], thanks to its interaction with SAP30, mSin3A, and HDAC1 [24]. This interaction is due to its 40–140 N-terminal motif [25], which is involved in chromatin remodeling. Depicting all the mSin3A/HDAC complex members illustrates this mechanism (Figure 1, panel B). Indeed, this multiprotein complex with mSin3A being its core component, is associated with HDAC 1 and 2 [26], that constitutes the major catalytic subunits. An additional core mSin3A/HDAC protein, AT-rich interactive domain-containing protein 4B (ARID4B), is believed to function as a linker between the mSin3A/HDAC complex and the nucleosome, thus, stabilizing their interaction [27]. Some other members of the complex are involved in the recruitment of the HDAC activity, such as BRMS1/L or SAP30/L [28,29], whereas factors as SIN3A Corepressor Complex Component (SUDS3) [30] and O-linked N-acetylglucosamine transferase (OGT) [31] specifically stabilizes HDAC within the complex, while Sin3A Associated Protein 18 (SAP18) [26] and SIN3-HDAC Complex Associated Factor (SINHCAF) [32] help tethering the complex to the target gene promoter, thereby allowing HDAC to regulate gene transcription (Figure 1, panel C). Finally, SAP130 enables the modulation of mSin3A/HDAC transcriptional repression activity by binding a coactivator [33]. Of note, it has been shown that the sumoylation of ING2 at Lysine 195 enhances ING2 association with the mSin3A/HDAC complex [25]. As this lysine residue belongs to a phosphorylation-dependent SUMO modification (PDSM) consensus sequence, some authors suggest phosphorylation could modulate this interaction [25], but it remains to be demonstrated experimentally.
Altogether, mSin3A/HDAC chromatin remodeling complex has been originally reported to massively repress the transcription of a number of genes [5,24,34,35]. Nevertheless, the same complex was recently shown to activate some genes [5,24,36], although this capacity seems limited to a small number of genes. Indeed, in a study based on the comparison of gene expression levels in wild-type versus SIN3-deficient cells in Drosophila using full-genome oligonucleotide microarrays, a 10-fold difference was found between the number of activated and repressed genes [5]. Hence, ING2 functions as a bridge to link mSin3A/HDAC complex to H3K4me3, thereby, promoting the deacetylation of adjacent acetylated histone residues, which in turn allows chromatin remodeling and regulation of gene transcription (Figure 1, panel C). Of note, ING1 and ING2 are mutually exclusive in the mSin3A/HDAC complex [37] and the binding affinity for H3K4me3 is greater for ING2 compared to the one of ING1 [3].
Another key role for ING2 involves the p53 pathway as ING2 promoter contains two p53 binding sites [38]. Furthermore, the expression of ING2 results in p53 acetylation at Lysine 382 through the histone acetyltransferase p300 [12]. This enhanced acetylation led to p53 activation, ultimately preventing cell proliferation through induction of either senescence [39], apoptosis [40,41], or cell-cycle arrest in G1 [42]. Hence, ING2 is involved in multiple cellular processes, most of which are recognized hallmarks of tumorigenesis (cell-cycle regulation, replicative senescence [7], DNA repair [8], and DNA replication [6]). Moreover, a study conducted on ING2 knockout mice indicates that ING2 deficiency spontaneously increases soft tissue sarcoma formation [9].
All of these facts highlight ING2 as a tumor suppressor gene, playing a critical role against tumor development and cancer, notably through the regulation of mSin3A/HDAC-mediated epigenetic functions.

3. ING2 Status in Human Tumors

3.1. ING2 Alterations in Human Tumors

As a tumor suppressor gene, several studies have explored ING2 gene status in different types of human tumors, whether at the genomic, transcriptomic or protein level. Using immunohistochemistry assay, it has been reported that ING2 protein expression was decreased in patients with, melanoma, breast cancer, hepatocellular carcinoma (16/29 and 44/84) and osteosarcoma [43,44,45]. This downregulation was correlated with tumor size, histological and pathological classification, alpha-fetoprotein serum level, and the overall survival in hepatocellular carcinoma [44], whereas it only correlated with the overall survival in patients with osteosarcoma [46]. Conversely, overexpression of the ING2 protein was found in patients with endometrial carcinoma and hepatocellular carcinoma (40/84) [44,45]. Moreover, studies on tumor cell lines also found that ING2 was overexpressed in cervical carcinoma, colon cancer, and acute lymphoblastic leukemia (ALL) cell lines [36,45,47]. However, the precise mechanism by which ING2 expression is altered was not fully elucidated in most studies. Nevertheless, some authors found that miR-153-3p represses ING2 expression in ALL cells by binding to the 3′-UTR site, and that miR-153-3p is downregulated in ALL cells [47], leading to ING2 overexpression. Additionally, NF-kB can bind to the ING2 promoter region and activate ING2 transcription in colon cancer. Finally, other authors have suggested that activation of NF-kB lead to the upregulation of ING2 [36].
At the transcriptomic level, studies found that ING2 mRNA was downregulated in several tumor types including basal cell carcinoma (75/75), hepatocellular carcinoma and osteosarcoma [44,46,48]. ING2 downregulation has also been reported in breast, lung, ovarian, pancreatic, and prostate cancer cell lines [49,50]. On one hand, ING2 upregulation at the mRNA level was reported in patients with colon cancer (18/34) [36], even if the underlying mechanism was not investigated in this study. On the other hand, one publication suggested that the ING2 gene could be targeted on its 3′-UTR site by miR-8084, which showed tumor-promoting properties in breast cancer [51]. This post-translational regulation of the ING2 gene expression might explain the discrepancies observed in many publications between ING2 mRNA level and ING2 protein expression [52].
Finally, at the genomic level, loss of heterozygosity (LOH) of the ING2 chromosomal region has been reported in ameloblastoma (14/28), head and neck squamous cell carcinoma (HNSCC) (30/55) (4q35.1), hepatocellular carcinoma (41.2%) (4q34–35.2), and basal cell carcinoma (3/11) (4q32-35) [53,54,55,56,57]. Moreover, LOH of the 4q35.1 region in HNSCC was correlated with tumor stage and disease-free survival but not with node status or overall survival [54], whereas no correlation has been found in hepatocellular carcinoma [55]. Additionally, deletion of the chromosomic region 4q34–35.2 containing the ING2 gene has also been reported in uterine leiomyosarcoma (3/6) [58], and hypermethylation of the seven CpG sites in multiple intronic regions of the ING2 gene has been shown in patients with esophageal squamous cell carcinoma. This was also observed in matched plasma cell-free DNA samples [59], even if the biological consequence of this intronic methylation on ING2 expression remains unknown.
To explore further ING2 status in cancer, we used The Cancer Genome Atlas database [60,61] to analyze alterations of the ING2 gene and the members of the mSin3A/HDAC complex. This analysis revealed that 221 out of 9,892 (2.23%) human cancer samples included in the TCGA Pancancer study presented an alteration of ING2 gene and 161 of these 221 (73%) alterations were deletions. Moreover, 2,384 out of 9,892 (24.1%) tumor samples presented an alteration in in at least one member of the Sin3a HDAC complex. Interestingly, one of the tumor types with the most frequent alteration in ING2 was the lung squamous cell carcinoma, comprising 5.54% of the tumors involved (Figure 2, panel A).

3.2. ING2 Alterations in Non-Small Cell Lung Cancer

ING2 has also been reported to be altered in NSCLC at the protein, transcriptomic, and genomic level. Indeed, two independent studies showed that ING2 expression levels were decreased at the protein level (independent of the p53 status). A study observed the loss of ING2 expression in 70 out of 120 (58.3%) NSCLC [62] (Table 1), and was more frequent in adenocarcinoma than in squamous cell carcinoma (68% and 45%, respectively). However, no correlation was observed between ING2 expression in NSCLC and age, gender, disease stage, or patient survival [62]. Another study, conducted on Chinese patient specimens, showed that the ING2 expression was lost in 21 of 64 (32.8%) NSCLC and more frequently in ADK than in SCC (45.8% and 26.3%, respectively) (Table 1). ING2 loss was correlated with lymph node metastasis status and TNM stage in squamous cell carcinoma, but not in adenocarcinome [63]. Whether these discrepancies between these two studies are due to antibody specificity or ethnic disparities (notably, oncogenic driver mutational status was unknown in both studies), remains to be elucidated.
Moreover, some study supports a transcriptional control of ING2 expression in NSCLC showing a correlation with ING2 mRNA decrease and low protein expression [62]. Consistently, studies also reported that ING2 was downregulated at the mRNA level in lung cancer cell lines [49,50]. Nevertheless, contradictory results have been found when analyzing TCGA and The Human Protein Atlas (THPA) databases, as the authors did not find any correlation between INGs mRNA and protein expression [52]. It is worth noticing that ING2 degradation has been shown to be mediated by Smad 1 ubiquitination regulatory factor 1 (Smurf 1) [65], a protein highly expressed in lung cancer [66]. Therefore, this mechanism could participate to the contradictory observation made between ING2 mRNA level and protein expression in lung cancer.
Another alteration frequently occurring in NSCLC is the chromosomal deletion of the 4q35.1 region, which includes ING2 gene. Indeed, it has been reported that the chromosomal region 4q34.2–35.1 was deleted in 2 out of 10 patients with NSCLC [64] (Table 1). However, further investigations on larger samples of patients need to be performed to confirm this observation. Additionally, this chromosomal region contains not only ING2 gene but also many other genes such as SAP30 and micro-RNAs (miR-6082; miR-548T; miR-4276; miR-1305; miR-3945; and miR-4455). Therefore, it is still unclear if the deletion of ING2 alone or the whole chromosomic region is implicated in promoting tumorigenesis. Concerning ING2 mutations, only silent ones have been found in NSCLC. As an example, a study reported a substitution (C to T) in exon 1 at codon 13 in 6 out of 31 lung cancer (without any change of the encoded amino acid (Alanine) [49]) was likely to be a polymorphism (Table 1).
Interestingly, the analysis of the mSin3A/HDAC complex member alterations in NSCLC via the TCGA database revealed that ING2 was altered in 20 out of 408 (4.9%) NSCLC and was found to be higher in squamous cell carcinoma than in adenocarcinoma (6.7% and 2.6%, respectively) (Figure 2, panel A). Moreover, the ING2 gene deep deletion was the most frequent alteration with 17 out of 408 (3.54%) NSCLC and was found to be higher in squamous cell carcinoma than in adenocarcinoma (6.18% and 2.61%, respectively). Only one missense mutation (E204Q) of ING2 of unknown significance was reported out of the 408 NSCLC samples. Focusing on all members of the mSin3A/HDAC complex, data revealed that 152 of the 408 (37.3%) NSCLC presented an alteration in at least one member of the mSin3A/HDAC complex, occurring in 38.8% of squamous cell carcinoma specimens and 36.1% of adenocarcinoma specimens (Figure 2, panel B). Notably, we found that patients presenting an alteration in at least one member of the mSin3A/HDAC complex had a higher probability of prolonged overall survival, in comparison with patients without any alteration of the complex in lung squamous cell carcinoma (p = 0.0451) (data not shown).
In summary, the tumor suppressor protein ING2 was found to be altered in human tumors, especially in NSCLC, mainly at the protein level (varying from 32.8% to 58.3% according to different studies). ING2 gene alterations in NSCLC are predominantly deletion, but still remain a rare event (less than 3%). Strikingly, genomic alteration of at least one component of the mSin3A/HDAC complex appears to be relatively common in human cancers and NSCLC (24.1% and 33%, respectively) (Figure 2, panel B).

4. Potential Role of the ING2 Epigenetic Modulation in Lung Cancer Treatment

NSCLC is a deadly disease and the leading cause of cancer-related death worldwide. Even if great advances in the field have been made during the last decade, notably thanks to the emergence of targeted therapies and immunotherapies, survival remains poor in the metastatic setting. In this context, developing new therapeutic approaches based on predictive biomarkers is still an active area of research [67]. As discussed above, ING2 genomic alterations are rare in non-small cell lung cancer, and loss at the protein level has been reported within a large proportion range. Even though the number of studies that investigate the expression of ING2 protein are limited in lung cancer, its potential use as a diagnosis biomarker has been suggested by some authors [68].

4.1. Exploring ING2 Dependencies in Cancer Cells

Recently, lot of great efforts have been made to uncover genetic vulnerabilities in cancer, notably taking advantage of the emergent CrispR-screening methods. The Cancer Dependency Map project, led by the Broad Institute, is a systematic high-throughput screening of genotype-specific cancer vulnerabilities in tumor cell lines [69]. According to the latest dataset (CrispR AVANA public 19Q2), many mSin3A/HDAC members are found among the top ING2 gene co-dependencies in cancer cell lines (Figure 3, panel A). These results suggest that many tumor cells lines are dependent on a functionally active mSin3A/HDAC complex for proliferation. Consequently, we speculate that it could be utilized as an “Achilles’ heel”, potentially leading to a biomarker-guided therapeutic model (Figure 3, panel B).
Moreover, multiple studies support the important biological role of the mSin3A-HDAC complex in tumors. Of note, it was originally shown that mSin3A/B recruitment was necessary to antagonize c-MYC induced transcriptional activation [70]. SIN3A-knockout studies using multiples physiological models demonstrate that a reduction of the mSin3A levels correlates with a loss of proliferative abilities [71,72]. Interestingly, mSin3A loss of expression in mouse foregut endoderm lead to severe defect in lung morphogenesis and development [73], underlying its biological role in lung epithelial cells. In cancer cells, whether the mSin3A/HDAC complex as a whole show more tumor suppressive or oncogenic properties, is still under debate [74]. However, the relative high frequencies of genomic alteration concerning at least one member of the mSin3A/HDAC complex in NSCLC TCGA samples, notably gene amplification (23.6% of adenocarcinoma and 17.53% of squamous cell carcinoma) (Figure 2, Panel B), clearly pledges for a “gain-of-function” phenotype predisposing tumors cells to a selective advantage. Additionally, small molecule inhibitors targeting Paired Amphipathic Helix 2 (PAH2) domain of mSin3A was shown to induce transcriptional reprogramming, impairment of clonogenic abilities, inhibition of proliferation, and metastasis in triple negative breast cancer models [75]. Coherently, the Cancer Dependency Map project database characterizes SIN3A gene as a “common essential” gene in a vast majority of cancer cell lines. It is of note that SIN3A-knockout mice embryos stop developing after 6.5 weeks [76]. Consequently, targeting mSin3A itself, or specific partners of the complex, appears to be an attractive therapeutic strategy in cancer. Conversely, it is hard to conciliate the fact that ING2 is a recognized tumor suppressor protein belonging to a multi-protein complex that tends to proffer oncogenic properties in cancer cells. However, some could argue that many non-epigenetic functions of ING2 favor its tumor suppressive activity (DNA repair, DNA replication, cell cycle progression, etc.) but it still remains an unresolved issue to date.

4.2. Targeting SIN3A-Mediated ING2 Functions in Cancer Cells

Suberoyl anilide hydroxamic acid (SAHA), also called vorinostat, a class I, II, and IV HDAC inhibitor (HDACi), was described as a potent inhibitor of the mSin3A/HDAC complex-mediated functions [37]. More precisely, ING2 protein interaction with the mSin3A-HDAC complex was abrogated in HEK 293T cells treated with SAHA [77]. Interestingly, HDAC inhibitor induced dissociation of ING2 with the mSin3A/HDAC complex was independent from the PHD domain of ING2, suggesting that this drug effect was not dependent on the ING2 chromatin fixation. Similar observations were made with other HDACi molecules (trichostatin A and apicidin). Notably, ING2 and mSin3A/HDAC complex occupancy on the tumor suppressor p21 promoter was reduced in SAHA treated HEK 293T. Consequently, authors hypothesized that ING2 disruption lead to the induction of p21 transcription, as it was observed, upon HDACi treatment [78]. Conversely, an independent study showed that p21 expression was reduced in ING2-downregulated U2OS cells, leading to cell cycle progression, in a p53-independent manner [79]. These contradictory findings might be explained by the broader cellular effects of SAHA, a pan-HDAC inhibitor [80], or by the potential impact of SAHA on ING2 post-translational modification. Notably, as already mentioned above, ING2 sumoylation on Lysine 195 has been described to enhance its interaction with mSin3A [25]. Therefore, whether ING2 disruption induced by SAHA is dependent on its sumoylation status is an interesting question that needs to be explored. Nevertheless, the use of SAHA represents an attractive approach to target ING2-mediated mSin3A/HDAC epigenetic functions.
Interestingly, the Cancer Dependency Map also uncovered a co-dependency between ING1 and ING2 in multiple cancer cell lines (data not shown) suggesting a potential crosstalk between the protein’s functions. Coherently, these two members of the ING family share an important structural homology, except for the N-terminal part, and are both stable and exclusive components of the mSin3A/HDAC complex. However, the subscription of ING1 and ING2 to this complex is highly conserved throughout evolution [81], suggesting that some ING1 and ING2 mSin3A/HDAC-mediated functions are biologically important but not redundant. In line with this hypothesis, ING1 and ING2 double knock-out mice show embryonic lethality (not published), but not their single knock-out counterparts, which shows distinct phenotypes [9,82]. In terms of therapeutic approach, HDAC inhibitors do not disturb ING1 interaction to mSin3A/HDAC [77], and it is, therefore, unknown if HDAC inhibitors could impact ING1 epigenetic functions. Finally, to our knowledge no study to date has concomitantly explored the status of ING1 and ING2 proteins in human cancers. Altogether, more experimental data are needed to precisely decipher the potential redundant or exclusive mSin3A/HDAC-mediated roles relying on ING1 and ING2.
During the last two decades, many HDAC inhibitors have been developed and were tested in clinical trials due to their pleiotropic antineoplastic properties [83]. Indeed, in various types of cancer, histone deacetylation was found to deeply impact cellular fate [84]. Of note, studies claiming to inactivate mSin3A as a therapeutic target in leukemia are limited to the use of non-selective HDAC inhibitors that do not target mSin3A directly. To date, HDAC inhibitors have only been approved for T cell-lymphoma (vorinostat, romidepsin, and belinostat) and multiple myeloma (panobinostat), but many clinical trials are ongoing in solid tumors [85]. As the specificity of HDAC inhibitors have greatly improved over the last decades, deciphering the biological consequences of these treatments on ING2 epigenetic function is of prime interest in order to explore new therapeutic strategies.
Altogether, these findings lead us to hypothesize a biomarker-based therapeutic strategy, involving ING2 as a tumor predictive factor for SAHA sensitivity in NSCLC (Figure 3, Panel B). In light of the observation of a high frequency of mSin3A/HDAC complex-alteration in cancer, determining if such genomic alteration could make ING2-expressing cells more prone to HDAC inhibitors efficacy is a very interesting hypothesis to elucidate. Conversely, in ING2-non-expressing cells, as this “target” could not be disrupted by SAHA, small molecules that directly inhibit mSin3A or more specific HDAC inhibitors, could represent a more convenient way to circumvent this issue. Experimental studies are actually ongoing to explore this working hypothesis.

5. Conclusions

ING2 protein is a chromatin reader and a stable component of the mSin3A/HDAC complex. Several tumor suppressive functions have been described for ING2 in cancer cell lines, and in accordance with these observations, ING2 expression is lost in many cancer subtypes. Interestingly, genomic alterations of mSin3A/HDAC members occur frequently in NSCLC, mainly through gene amplification. Recent experimental data have revealed that a vast majority of tumor cell lines depend on a functionally active mSin3A/HDAC complex to proliferate. As ING2 can be pharmacologically disrupted from the mSin3A/HDAC complex by SAHA, we built a model based on an ING2 biomarker-guided therapeutic hypothesis. Further research is still warranted to confirm the predictive value of ING2 in clinical practice of NSCLC.

Author Contributions

A.B. (Alice Blondel), A.B. (Amine Benberghout), and C.R. were responsible for literature review and manuscript writing. A.B. (Alice Blondel) and C.R. were responsible for editing the figures. A.B. (Amine Benberghout) was responsible for editing the tables. R.P. was responsible for manuscript design and review. All authors approved the final version of the manuscript.

Funding

This work was supported by Institut National de la Santé et de la Recherche Médicale (INSERM), Fondation pour la Recherche Médicale (FRM), Ligue contre le Cancer Grand Ouest and Fondation Novartis (DEQ20180339169).

Acknowledgments

A.B. (Alice Blondel) is a recipient of the doctoral fellowship ARED/INSERM (région Bretagne). C.R. is a recipient of the FHU Camin (CHU Rennes) and Nuovo-Soldati Fundation (CHU Genève) fellowships.

Conflicts of Interest

The authors declare no conflict of interest.

References

  1. Molina, J.R.; Yang, P.; Cassivi, S.D.; Schild, S.E.; Adjei, A.A. Non-small cell lung cancer: Epidemiology, risk factors, treatment, and survivorship. Mayo Clin. Proc. 2008, 83, 584–594. [Google Scholar] [CrossRef]
  2. Shi, X.; Hong, T.; Walter, K.L.; Ewalt, M.; Michishita, E.; Hung, T.; Carney, D.; Peña, P.; Lan, F.; Kaadige, M.R.; et al. ING2 PHD domain links histone H3 lysine 4 methylation to active gene repression. Nature 2006, 442, 96–99. [Google Scholar] [CrossRef] [PubMed]
  3. Peña, P.V.; Davrazou, F.; Shi, X.; Walter, K.L.; Verkhusha, V.V.; Gozani, O.; Zhao, R.; Kutateladze, T.G. Molecular mechanism of histone H3K4me3 recognition by plant homeodomain of ING2. Nature 2006, 442, 100–103. [Google Scholar] [CrossRef] [PubMed]
  4. Doyon, Y.; Cayrou, C.; Ullah, M.; Landry, A.-J.; Côté, V.; Selleck, W.; Lane, W.S.; Tan, S.; Yang, X.-J.; Côté, J. ING tumor suppressor proteins are critical regulators of chromatin acetylation required for genome expression and perpetuation. Mol. Cell 2006, 21, 51–64. [Google Scholar] [CrossRef] [PubMed]
  5. Pile, L.A.; Spellman, P.T.; Katzenberger, R.J.; Wassarman, D.A. The SIN3 deacetylase complex represses genes encoding mitochondrial proteins: Implications for the regulation of energy metabolism. J. Biol. Chem. 2003, 278, 37840–37848. [Google Scholar] [CrossRef]
  6. Larrieu, D.; Ythier, D.; Binet, R.; Brambilla, C.; Brambilla, E.; Sengupta, S.; Pedeux, R. ING2 controls the progression of DNA replication forks to maintain genome stability. EMBO Rep. 2009, 10, 1168–1174. [Google Scholar] [CrossRef] [Green Version]
  7. Pedeux, R.; Sengupta, S.; Shen, J.C.; Demidov, O.N.; Saito, S.; Onogi, H.; Kumamoto, K.; Wincovitch, S.; Garfield, S.H.; McMenamin, M.; et al. ING2 regulates the onset of replicative senescence by induction of p300-dependent p53 acetylation. Mol. Cell. Biol. 2005, 25, 6639–6648. [Google Scholar] [CrossRef]
  8. Wang, J.; Chin, M.Y.; Li, G. The novel tumor suppressor p33ING2 enhances nucleotide excision repair via inducement of histone H4 acetylation and chromatin relaxation. Cancer Res. 2006, 66, 1906–1911. [Google Scholar] [CrossRef]
  9. Saito, M.; Kumamoto, K.; Robles, A.I.; Horikawa, I.; Furusato, B.; Okamura, S.; Goto, A.; Yamashita, T.; Nagashima, M.; Lee, T.-L.; et al. Targeted disruption of Ing2 results in defective spermatogenesis and development of soft-tissue sarcomas. PLoS ONE 2010, 5, e15541. [Google Scholar] [CrossRef]
  10. Garkavtsev, I.; Kazarov, A.; Gudkov, A.; Riabowol, K. Suppression of the novel growth inhibitor p33ING1 promotes neoplastic transformation. Nat. Genet. 1996, 14, 415–420. [Google Scholar] [CrossRef]
  11. Shimada, Y.; Saito, A.; Suzuki, M.; Takahashi, E.; Horie, M. Cloning of a novel gene (ING1L) homologous to ING1, a candidate tumor suppressor. Cytogenet. Cell Genet. 1998, 83, 232–235. [Google Scholar] [CrossRef] [PubMed]
  12. Nagashima, M.; Shiseki, M.; Miura, K.; Hagiwara, K.; Linke, S.P.; Pedeux, R.; Wang, X.W.; Yokota, J.; Riabowol, K.; Harris, C.C. DNA damage-inducible gene p33ING2 negatively regulates cell proliferation through acetylation of p53. Proc. Natl. Acad. Sci. USA 2001, 98, 9671–9676. [Google Scholar] [CrossRef] [PubMed]
  13. Nagashima, M.; Shiseki, M.; Pedeux, R.M.; Okamura, S.; Kitahama-Shiseki, M.; Miura, K.; Yokota, J.; Harris, C.C. A novel PHD-finger motif protein, p47ING3, modulates p53-mediated transcription, cell cycle control, and apoptosis. Oncogene 2003, 22, 343–350. [Google Scholar] [CrossRef] [PubMed] [Green Version]
  14. Shiseki, M.; Nagashima, M.; Pedeux, R.M.; Kitahama-Shiseki, M.; Miura, K.; Okamura, S.; Onogi, H.; Higashimoto, Y.; Appella, E.; Yokota, J.; et al. p29ING4 and p28ING5 bind to p53 and p300, and enhance p53 activity. Cancer Res. 2003, 63, 2373–2378. [Google Scholar]
  15. Unoki, M.; Kumamoto, K.; Robles, A.I.; Shen, J.C.; Zheng, Z.-M.; Harris, C.C. A novel ING2 isoform, ING2b, synergizes with ING2a to prevent cell cycle arrest and apoptosis. FEBS Lett. 2008, 582, 3868–3874. [Google Scholar] [CrossRef] [PubMed] [Green Version]
  16. Luger, K.; Mäder, A.W.; Richmond, R.K.; Sargent, D.F.; Richmond, T.J. Crystal structure of the nucleosome core particle at 2.8 A resolution. Nature 1997, 389, 251–260. [Google Scholar] [CrossRef]
  17. Murray, K. The occurrence of epsilon-n-methyl lysine in histones. Biochemistry 1964, 3, 10–15. [Google Scholar] [CrossRef]
  18. Fischle, W.; Franz, H.; Jacobs, S.A.; Allis, C.D.; Khorasanizadeh, S. Specificity of the chromodomain Y chromosome family of chromodomains for lysine-methylated ARK(S/T) motifs. J. Biol. Chem. 2008, 283, 19626–19635. [Google Scholar] [CrossRef]
  19. Bernstein, B.E.; Kamal, M.; Lindblad-Toh, K.; Bekiranov, S.; Bailey, D.K.; Huebert, D.J.; McMahon, S.; Karlsson, E.K.; Kulbokas, E.J.; Gingeras, T.R.; et al. Genomic maps and comparative analysis of histone modifications in human and mouse. Cell 2005, 120, 169–181. [Google Scholar] [CrossRef]
  20. Santos-Rosa, H.; Schneider, R.; Bannister, A.J.; Sherriff, J.; Bernstein, B.E.; Emre, N.C.T.; Schreiber, S.L.; Mellor, J.; Kouzarides, T. Active genes are tri-methylated at K4 of histone H3. Nature 2002, 419, 407–411. [Google Scholar] [CrossRef]
  21. Gozani, O.; Karuman, P.; Jones, D.R.; Ivanov, D.; Cha, J.; Lugovskoy, A.A.; Baird, C.L.; Zhu, H.; Field, S.J.; Lessnick, S.L.; et al. The PHD finger of the chromatin-associated protein ING2 functions as a nuclear phosphoinositide receptor. Cell 2003, 114, 99–111. [Google Scholar] [CrossRef]
  22. Kaadige, M.R.; Ayer, D.E. The polybasic region that follows the plant homeodomain zinc finger 1 of Pf1 is necessary and sufficient for specific phosphoinositide binding. J. Biol. Chem. 2006, 281, 28831–28836. [Google Scholar] [CrossRef] [PubMed]
  23. Bua, D.J.; Martin, G.M.; Binda, O.; Gozani, O. Nuclear phosphatidylinositol-5-phosphate regulates ING2 stability at discrete chromatin targets in response to DNA damage. Sci. Rep. 2013, 3, 2137. [Google Scholar] [CrossRef] [PubMed]
  24. Ohkouchi, C.; Kumamoto, K.; Saito, M.; Ishigame, T.; Suzuki, S.-I.; Takenoshita, S.; Harris, C.C. ING2, a tumor associated gene, enhances PAI-1 and HSPA1A expression with HDAC1 and mSin3A through the PHD domain and C-terminal. Mol. Med. Rep. 2017, 16, 7367–7374. [Google Scholar] [CrossRef] [Green Version]
  25. Ythier, D.; Larrieu, D.; Binet, R.; Binda, O.; Brambilla, C.; Gazzeri, S.; Pedeux, R. Sumoylation of ING2 regulates the transcription mediated by Sin3A. Oncogene 2010, 29, 5946–5956. [Google Scholar] [CrossRef]
  26. Zhang, Y.; Iratni, R.; Erdjument-Bromage, H.; Tempst, P.; Reinberg, D. Histone deacetylases and SAP18, a novel polypeptide, are components of a human Sin3 complex. Cell 1997, 89, 357–364. [Google Scholar] [CrossRef]
  27. Parthun, M.R.; Widom, J.; Gottschling, D.E. The major cytoplasmic histone acetyltransferase in yeast: Links to chromatin replication and histone metabolism. Cell 1996, 87, 85–94. [Google Scholar] [CrossRef]
  28. Laherty, C.D.; Billin, A.N.; Lavinsky, R.M.; Yochum, G.S.; Bush, A.C.; Sun, J.M.; Mullen, T.M.; Davie, J.R.; Rose, D.W.; Glass, C.K.; et al. SAP30, a component of the mSin3 corepressor complex involved in N-CoR-mediated repression by specific transcription factors. Mol. Cell 1998, 2, 33–42. [Google Scholar] [CrossRef]
  29. Zhang, Y.; Sun, Z.W.; Iratni, R.; Erdjument-Bromage, H.; Tempst, P.; Hampsey, M.; Reinberg, D. SAP30, a novel protein conserved between human and yeast, is a component of a histone deacetylase complex. Mol. Cell 1998, 1, 1021–1031. [Google Scholar] [CrossRef]
  30. Alland, L.; David, G.; Shen-Li, H.; Potes, J.; Muhle, R.; Lee, H.-C.; Hou, H.; Chen, K.; DePinho, R.A. Identification of mammalian Sds3 as an integral component of the Sin3/histone deacetylase corepressor complex. Mol. Cell. Biol. 2002, 22, 2743–2750. [Google Scholar] [CrossRef]
  31. Yang, X.; Zhang, F.; Kudlow, J.E. Recruitment of O-GlcNAc transferase to promoters by corepressor mSin3A: Coupling protein O-GlcNAcylation to transcriptional repression. Cell 2002, 110, 69–80. [Google Scholar] [CrossRef]
  32. Muñoz, I.M.; MacArtney, T.; Sanchez-Pulido, L.; Ponting, C.P.; Rocha, S.; Rouse, J. Family with sequence similarity 60A (FAM60A) protein is a cell cycle-fluctuating regulator of the SIN3-HDAC1 histone deacetylase complex. J. Biol. Chem. 2012, 287, 32346–32353. [Google Scholar] [CrossRef] [PubMed]
  33. Fleischer, T.C.; Yun, U.J.; Ayer, D.E. Identification and characterization of three new components of the mSin3A corepressor complex. Mol. Cell. Biol. 2003, 23, 3456–3467. [Google Scholar] [CrossRef] [PubMed]
  34. Li, J.; Lin, Q.; Wang, W.; Wade, P.; Wong, J. Specific targeting and constitutive association of histone deacetylase complexes during transcriptional repression. Genes Dev. 2002, 16, 687–692. [Google Scholar] [CrossRef] [PubMed] [Green Version]
  35. Peinado, H.; Ballestar, E.; Esteller, M.; Cano, A. Snail mediates E-cadherin repression by the recruitment of the Sin3A/histone deacetylase 1 (HDAC1)/HDAC2 complex. Mol. Cell. Biol. 2004, 24, 306–319. [Google Scholar] [CrossRef]
  36. Kumamoto, K.; Fujita, K.; Kurotani, R.; Saito, M.; Unoki, M.; Hagiwara, N.; Shiga, H.; Bowman, E.D.; Yanaihara, N.; Okamura, S.; et al. ING2 is upregulated in colon cancer and increases invasion by enhanced MMP13 expression. Int. J. Cancer 2009, 125, 1306–1315. [Google Scholar] [CrossRef] [Green Version]
  37. Sardiu, M.E.; Smith, K.T.; Groppe, B.D.; Gilmore, J.M.; Saraf, A.; Egidy, R.; Peak, A.; Seidel, C.W.; Florens, L.; Workman, J.L.; et al. Suberoylanilide hydroxamic acid (SAHA)-induced dynamics of a human histone deacetylase protein interaction network. Mol. Cell Proteomics 2014, 13, 3114–3125. [Google Scholar] [CrossRef]
  38. Kumamoto, K.; Spillare, E.A.; Fujita, K.; Horikawa, I.; Yamashita, T.; Appella, E.; Nagashima, M.; Takenoshita, S.; Yokota, J.; Harris, C.C. Nutlin-3a activates p53 to both down-regulate inhibitor of growth 2 and up-regulate mir-34a, mir-34b, and mir-34c expression, and induce senescence. Cancer Res. 2008, 68, 3193–3203. [Google Scholar] [CrossRef]
  39. Serrano, M.; Lin, A.W.; McCurrach, M.E.; Beach, D.; Lowe, S.W. Oncogenic ras provokes premature cell senescence associated with accumulation of p53 and p16INK4a. Cell 1997, 88, 593–602. [Google Scholar] [CrossRef]
  40. Lotem, J.; Sachs, L. Hematopoietic cells from mice deficient in wild-type p53 are more resistant to induction of apoptosis by some agents. Blood 1993, 82, 1092–1096. [Google Scholar] [CrossRef] [Green Version]
  41. Yonish-Rouach, E.; Resnitzky, D.; Lotem, J.; Sachs, L.; Kimchi, A.; Oren, M. Wild-type p53 induces apoptosis of myeloid leukaemic cells that is inhibited by interleukin-6. Nature 1991, 352, 345–347. [Google Scholar] [CrossRef] [PubMed]
  42. Di Leonardo, A.; Linke, S.P.; Clarkin, K.; Wahl, G.M. DNA damage triggers a prolonged p53-dependent G1 arrest and long-term induction of Cip1 in normal human fibroblasts. Genes Dev. 1994, 8, 2540–2551. [Google Scholar] [CrossRef] [PubMed]
  43. Lu, F.; Dai, D.L.; Martinka, M.; Ho, V.; Li, G. Nuclear ING2 expression is reduced in human cutaneous melanomas. Br. J. Cancer 2006, 95, 80–86. [Google Scholar] [CrossRef] [PubMed]
  44. Zhang, H.; Pan, K.; Wang, H.; Weng, D.; Song, H.; Zhou, J.; Huang, W.; Li, J.; Chen, M.; Xia, J. Decreased expression of ING2 gene and its clinicopathological significance in hepatocellular carcinoma. Cancer Lett. 2008, 261, 183–192. [Google Scholar] [CrossRef] [PubMed]
  45. Zhao, S.; Yang, X.-F.; Gou, W.-F.; Lu, H.; Li, H.; Zhu, Z.-T.; Sun, H.-Z.; Zheng, H.-C. Expression profiles of inhibitor of growth protein 2 in normal and cancer tissues: An immunohistochemical screening analysis. Mol. Med. Rep. 2016, 13, 1881–1887. [Google Scholar] [CrossRef]
  46. Han, X.-R.; Bai, X.-Z.; Sun, Y.; Yang, Y. Nuclear ING2 expression is reduced in osteosarcoma. Oncol. Rep. 2014, 32, 1967–1972. [Google Scholar] [CrossRef] [Green Version]
  47. Jiang, J.; Liu, Y.; Zhao, Y.; Tian, F.; Wang, G. miR-153-3p Suppresses Inhibitor of Growth Protein 2 Expression to Function as Tumor Suppressor in Acute Lymphoblastic Leukemia. Technol. Cancer Res. Treat. 2019, 18, 1533033819852990. [Google Scholar] [CrossRef]
  48. Temel, M.; Turkmen, A.; Dokuyucu, R.; Cevik, C.; Oztuzcu, S.; Cengiz, B.; Mutaf, M. A novel tumor suppressor gene in basal cell carcinoma: Inhibition of growth factor-2. Tumour Biol. 2015, 36, 4611–4616. [Google Scholar] [CrossRef]
  49. Okano, T.; Gemma, A.; Hosoya, Y.; Hosomi, Y.; Nara, M.; Kokubo, Y.; Yoshimura, A.; Shibuya, M.; Nagashima, M.; Harris, C.C.; et al. Alterations in novel candidate tumor suppressor genes, ING1 and ING2 in human lung cancer. Oncol. Rep. 2006, 15, 545–549. [Google Scholar] [CrossRef] [Green Version]
  50. Walzak, A.A.; Veldhoen, N.; Feng, X.; Riabowol, K.; Helbing, C.C. Expression profiles of mRNA transcript variants encoding the human inhibitor of growth tumor suppressor gene family in normal and neoplastic tissues. Exp. Cell Res. 2008, 314, 273–285. [Google Scholar] [CrossRef]
  51. Gao, Y.; Ma, H.; Gao, C.; Lv, Y.; Chen, X.; Xu, R.; Sun, M.; Liu, X.; Lu, X.; Pei, X.; et al. Tumor-promoting properties of miR-8084 in breast cancer through enhancing proliferation, suppressing apoptosis and inducing epithelial-mesenchymal transition. J. Transl. Med. 2018, 16, 38. [Google Scholar] [CrossRef] [PubMed]
  52. Gournay, M.; Paineau, M.; Archambeau, J.; Pedeux, R. Regulat-INGs in tumors and diseases: Focus on ncRNAs. Cancer Lett. 2019, 447, 66–74. [Google Scholar] [CrossRef] [PubMed]
  53. Sironi, E.; Cerri, A.; Tomasini, D.; Sirchia, S.M.; Porta, G.; Rossella, F.; Grati, F.R.; Simoni, G. Loss of heterozygosity on chromosome 4q32-35 in sporadic basal cell carcinomas: Evidence for the involvement of p33ING2/ING1L and SAP30 genes. J. Cutan. Pathol. 2004, 31, 318–322. [Google Scholar] [CrossRef] [PubMed]
  54. Borkosky, S.S.; Gunduz, M.; Nagatsuka, H.; Beder, L.B.; Gunduz, E.; Ali, M.A.L.S.; Rodriguez, A.P.; Cilek, M.Z.; Tominaga, S.; Yamanaka, N.; et al. Frequent deletion of ING2 locus at 4q35.1 associates with advanced tumor stage in head and neck squamous cell carcinoma. J. Cancer Res. Clin. Oncol. 2009, 135, 703–713. [Google Scholar] [CrossRef]
  55. Zhang, H.; Ma, H.; Wang, Q.; Chen, M.; Weng, D.; Wang, H.; Zhou, J.; Li, Y.; Sun, J.; Chen, Y.; et al. Analysis of loss of heterozygosity on chromosome 4q in hepatocellular carcinoma using high-throughput SNP array. Oncol. Rep. 2010, 23, 445–455. [Google Scholar] [PubMed]
  56. Borkosky, S.S.; Gunduz, M.; Beder, L.; Tsujigiwa, H.; Tamamura, R.; Gunduz, E.; Katase, N.; Rodriguez, A.P.; Sasaki, A.; Nagai, N.; et al. Allelic loss of the ING gene family loci is a frequent event in ameloblastoma. Oncol. Res. 2010, 18, 509–518. [Google Scholar] [CrossRef] [PubMed]
  57. Cetin, E.; Cengiz, B.; Gunduz, E.; Gunduz, M.; Nagatsuka, H.; Bekir-Beder, L.; Fukushima, K.; Pehlivan, D.; Nishizaki, K.; Shimizu, K.; et al. Deletion mapping of chromosome 4q22-35 and identification of four frequently deleted regions in head and neck cancers. Neoplasma 2008, 55, 299–304. [Google Scholar]
  58. Mittal, K.R.; Chen, F.; Wei, J.J.; Rijhvani, K.; Kurvathi, R.; Streck, D.; Dermody, J.; Toruner, G.A. Molecular and immunohistochemical evidence for the origin of uterine leiomyosarcomas from associated leiomyoma and symplastic leiomyoma-like areas. Mod. Pathol. 2009, 22, 1303–1311. [Google Scholar] [CrossRef] [Green Version]
  59. Wang, H.-Q.; Yang, C.-Y.; Wang, S.-Y.; Wang, T.; Han, J.-L.; Wei, K.; Liu, F.-C.; Xu, J.; Peng, X.-Z.; Wang, J.-M. Cell-free plasma hypermethylated CASZ1, CDH13 and ING2 are promising biomarkers of esophageal cancer. J. Biomed. Res. 2018, 32, 424–433. [Google Scholar]
  60. Cerami, E.; Gao, J.; Dogrusoz, U.; Gross, B.E.; Sumer, S.O.; Aksoy, B.A.; Jacobsen, A.; Byrne, C.J.; Heuer, M.L.; Larsson, E.; et al. The cBio cancer genomics portal: An open platform for exploring multidimensional cancer genomics data. Cancer Discov. 2012, 2, 401–404. [Google Scholar] [CrossRef]
  61. Gao, J.; Aksoy, B.A.; Dogrusoz, U.; Dresdner, G.; Gross, B.; Sumer, S.O.; Sun, Y.; Jacobsen, A.; Sinha, R.; Larsson, E.; et al. Integrative analysis of complex cancer genomics and clinical profiles using the cBioPortal. Sci. Signal 2013, 6, pl1. [Google Scholar] [CrossRef] [PubMed]
  62. Ythier, D.; Brambilla, E.; Binet, R.; Nissou, D.; Vesin, A.; de Fraipont, F.; Moro-Sibilot, D.; Lantuejoul, S.; Brambilla, C.; Gazzeri, S.; et al. Expression of candidate tumor suppressor gene ING2 is lost in non-small cell lung carcinoma. Lung Cancer 2010, 69, 180–186. [Google Scholar] [CrossRef] [PubMed]
  63. Pan, Y.Q.; Zhang, X.; Xu, D.P.; Bao, W.G.; Lin, A.F.; Xu, H.H.; Yan, W.H. Decreased expression of ING2 gene and its clinicopathological significance in Chinese NSCLC patients. Neoplasma 2014, 61, 468–475. [Google Scholar] [CrossRef] [PubMed] [Green Version]
  64. Al Zeyadi, M.; Dimova, I.; Ranchich, V.; Rukova, B.; Nesheva, D.; Hamude, Z.; Georgiev, S.; Petrov, D.; Toncheva, D. Whole genome microarray analysis in non-small cell lung cancer. Biotechnol. Biotechnol. Equip. 2015, 29, 111–118. [Google Scholar] [CrossRef] [PubMed]
  65. Nie, J.; Liu, L.; Wu, M.; Xing, G.; He, S.; Yin, Y.; Tian, C.; He, F.; Zhang, L. HECT ubiquitin ligase Smurf1 targets the tumor suppressor ING2 for ubiquitination and degradation. FEBS Lett. 2010, 584, 3005–3012. [Google Scholar] [CrossRef] [Green Version]
  66. Li, H.; Xiao, N.; Wang, Y.; Wang, R.; Chen, Y.; Pan, W.; Liu, D.; Li, S.; Sun, J.; Zhang, K.; et al. Smurf1 regulates lung cancer cell growth and migration through interaction with and ubiquitination of PIPKIγ. Oncogene 2017, 36, 5668–5680. [Google Scholar] [CrossRef]
  67. Tan, W.-L.; Jain, A.; Takano, A.; Newell, E.W.; Iyer, N.G.; Lim, W.-T.; Tan, E.-H.; Zhai, W.; Hillmer, A.M.; Tam, W.-L.; et al. Novel therapeutic targets on the horizon for lung cancer. Lancet Oncol. 2016, 17, e347–e362. [Google Scholar] [CrossRef]
  68. Smolle, E.; Fink-Neuboeck, N.; Lindenmann, J.; Smolle-Juettner, F.; Pichler, M. The Biological and Clinical Relevance of Inhibitor of Growth (ING) Genes in Non-Small Cell Lung Cancer. Cancers 2019, 11, 1118. [Google Scholar] [CrossRef]
  69. Tsherniak, A.; Vazquez, F.; Montgomery, P.G.; Weir, B.A.; Kryukov, G.; Cowley, G.S.; Gill, S.; Harrington, W.F.; Pantel, S.; Krill-Burger, J.M.; et al. Defining a Cancer Dependency Map. Cell 2017, 170, 564–576. [Google Scholar] [CrossRef]
  70. Laherty, C.D.; Yang, W.M.; Sun, J.M.; Davie, J.R.; Seto, E.; Eisenman, R.N. Histone deacetylases associated with the mSin3 corepressor mediate mad transcriptional repression. Cell 1997, 89, 349–356. [Google Scholar] [CrossRef]
  71. Cowley, S.M.; Iritani, B.M.; Mendrysa, S.M.; Xu, T.; Cheng, P.F.; Yada, J.; Liggitt, H.D.; Eisenman, R.N. The mSin3A chromatin-modifying complex is essential for embryogenesis and T-cell development. Mol. Cell. Biol. 2005, 25, 6990–7004. [Google Scholar] [CrossRef]
  72. Dannenberg, J.-H.; David, G.; Zhong, S.; van der Torre, J.; Wong, W.H.; Depinho, R.A. mSin3A corepressor regulates diverse transcriptional networks governing normal and neoplastic growth and survival. Genes Dev. 2005, 19, 1581–1595. [Google Scholar] [CrossRef] [PubMed] [Green Version]
  73. Yao, C.; Carraro, G.; Konda, B.; Guan, X.; Mizuno, T.; Chiba, N.; Kostelny, M.; Kurkciyan, A.; David, G.; McQualter, J.L.; et al. Sin3a regulates epithelial progenitor cell fate during lung development. Development 2017, 144, 2618–2628. [Google Scholar] [CrossRef] [PubMed] [Green Version]
  74. Bansal, N.; David, G.; Farias, E.; Waxman, S. Emerging Roles of Epigenetic Regulator Sin3 in Cancer. Adv. Cancer Res. 2016, 130, 113–135. [Google Scholar] [PubMed]
  75. Kwon, Y.-J.; Petrie, K.; Leibovitch, B.A.; Zeng, L.; Mezei, M.; Howell, L.; Gil, V.; Christova, R.; Bansal, N.; Yang, S.; et al. Selective Inhibition of SIN3 Corepressor with Avermectins as a Novel Therapeutic Strategy in Triple-Negative Breast Cancer. Mol. Cancer Ther. 2015, 14, 1824–1836. [Google Scholar] [CrossRef] [PubMed]
  76. McDonel, P.; Demmers, J.; Tan, D.W.M.; Watt, F.; Hendrich, B.D. Sin3a is essential for the genome integrity and viability of pluripotent cells. Dev. Biol. 2012, 363, 62–73. [Google Scholar] [CrossRef] [Green Version]
  77. Smith, K.T.; Martin-Brown, S.A.; Florens, L.; Washburn, M.P.; Workman, J.L. Deacetylase inhibitors dissociate the histone-targeting ING2 subunit from the Sin3 complex. Chem. Biol. 2010, 17, 65–74. [Google Scholar] [CrossRef]
  78. Richon, V.M.; Sandhoff, T.W.; Rifkind, R.A.; Marks, P.A. Histone deacetylase inhibitor selectively induces p21WAF1 expression and gene-associated histone acetylation. Proc. Natl. Acad. Sci. USA 2000, 97, 10014–10019. [Google Scholar] [CrossRef]
  79. Larrieu, D.; Ythier, D.; Brambilla, C.; Pedeux, R. ING2 controls the G1 to S-phase transition by regulating p21 expression. Cell Cycle 2010, 9, 3984–3990. [Google Scholar] [CrossRef]
  80. Jones, P.A.; Issa, J.-P.J.; Baylin, S. Targeting the cancer epigenome for therapy. Nat. Rev. Genet. 2016, 17, 630–641. [Google Scholar] [CrossRef]
  81. Loewith, R.; Meijer, M.; Lees-Miller, S.P.; Riabowol, K.; Young, D. Three yeast proteins related to the human candidate tumor suppressor p33(ING1) are associated with histone acetyltransferase activities. Mol. Cell. Biol. 2000, 20, 3807–3816. [Google Scholar] [CrossRef] [PubMed]
  82. Kichina, J.V.; Zeremski, M.; Aris, L.; Gurova, K.V.; Walker, E.; Franks, R.; Nikitin, A.Y.; Kiyokawa, H.; Gudkov, A.V. Targeted disruption of the mouse ing1 locus results in reduced body size, hypersensitivity to radiation and elevated incidence of lymphomas. Oncogene 2006, 25, 857–866. [Google Scholar] [CrossRef] [PubMed]
  83. Roca, M.S.; Di Gennaro, E.; Budillon, A. Implication for Cancer Stem Cells in Solid Cancer Chemo-Resistance: Promising Therapeutic Strategies Based on the Use of HDAC Inhibitors. J. Clin. Med. 2019, 8, 912. [Google Scholar] [CrossRef] [PubMed]
  84. Patra, S.; Panigrahi, D.P.; Praharaj, P.P.; Bhol, C.S.; Mahapatra, K.K.; Mishra, S.R.; Behera, B.P.; Jena, M.; Bhutia, S.K. Dysregulation of histone deacetylases in carcinogenesis and tumor progression: A possible link to apoptosis and autophagy. Cell. Mol. Life Sci. 2019, 76, 3263–3282. [Google Scholar] [CrossRef]
  85. Eckschlager, T.; Plch, J.; Stiborova, M.; Hrabeta, J. Histone Deacetylase Inhibitors as Anticancer Drugs. Int. J. Mol. Sci. 2017, 18, 1414. [Google Scholar] [CrossRef]
Figure 1. ING2 regulation of gene transcription through its interaction with H3K4me3 and the transcriptional regulator complex mSin3A/HDAC. (A) Protein structure of Human ING2. LZL—leucine zipper-like region; NCR—novel conserved region; NLS—nuclear localization signal, *within the NLS three short regions act as a nucleolar targeting signal (NTS); REASP—binding motif; PHD—plant homeodomain; PBR—polybasic region. ING2 structure was built according to UniProtKB ING2_Human (Q9H160). (B) Mammalian Sin3A/HDAC complex members. The core Sin3A subunits are depicted in green, the Sin3A associated proteins are depicted in blue, and the transcription factors are depicted in red. The names given for each complex member is the one approved by the HUGO Gene Nomenclature Committee (HGNC). (C) Schematic representation of ING2/H3K4me3/Sin3A formation regulating gene transcription. ING2 PHD domain recognizes trimethylated H3K4 (H3K4me3) as well as phosphatidylinositol 5-phosphate (PI(5)P) while the ING2 N-terminal part is detected by the transcriptional regulator complex mSin3-histone deacetylase. The ING2 sumoylation at Lysine 195 increases its association with this complex. An elevation in PI(5)P nuclear level triggers ING2/mSin3A complex relocalization to novel chromatin sites to regulate the transcription of target genes.
Figure 1. ING2 regulation of gene transcription through its interaction with H3K4me3 and the transcriptional regulator complex mSin3A/HDAC. (A) Protein structure of Human ING2. LZL—leucine zipper-like region; NCR—novel conserved region; NLS—nuclear localization signal, *within the NLS three short regions act as a nucleolar targeting signal (NTS); REASP—binding motif; PHD—plant homeodomain; PBR—polybasic region. ING2 structure was built according to UniProtKB ING2_Human (Q9H160). (B) Mammalian Sin3A/HDAC complex members. The core Sin3A subunits are depicted in green, the Sin3A associated proteins are depicted in blue, and the transcription factors are depicted in red. The names given for each complex member is the one approved by the HUGO Gene Nomenclature Committee (HGNC). (C) Schematic representation of ING2/H3K4me3/Sin3A formation regulating gene transcription. ING2 PHD domain recognizes trimethylated H3K4 (H3K4me3) as well as phosphatidylinositol 5-phosphate (PI(5)P) while the ING2 N-terminal part is detected by the transcriptional regulator complex mSin3-histone deacetylase. The ING2 sumoylation at Lysine 195 increases its association with this complex. An elevation in PI(5)P nuclear level triggers ING2/mSin3A complex relocalization to novel chromatin sites to regulate the transcription of target genes.
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Figure 2. Despite ING2 being rarely altered at the genomic level in cancers, genomic alteration of at least one member of the mSin3A/HDAC complex is frequent. (A) Bar graph showing the alteration frequency according to pathology (from the TCGA database). Blue represents gene deletion, red represents gene amplification, and green represents gene mutation. (B) Heatmap representing genomic alterations of mSin3A/HDAC members, according to NSCLC subtype (adenocarcinoma or squamous cell carcinoma) (from the TCGA database). First line is a pool of all mSin3A/HDAC member genomic alterations. Of note, specimens without any genomic alteration concerning the mSin3A/HDAC members are not depicted in the figure.
Figure 2. Despite ING2 being rarely altered at the genomic level in cancers, genomic alteration of at least one member of the mSin3A/HDAC complex is frequent. (A) Bar graph showing the alteration frequency according to pathology (from the TCGA database). Blue represents gene deletion, red represents gene amplification, and green represents gene mutation. (B) Heatmap representing genomic alterations of mSin3A/HDAC members, according to NSCLC subtype (adenocarcinoma or squamous cell carcinoma) (from the TCGA database). First line is a pool of all mSin3A/HDAC member genomic alterations. Of note, specimens without any genomic alteration concerning the mSin3A/HDAC members are not depicted in the figure.
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Figure 3. Co-dependency between ING2 and mSin3A/HDAC complex members in tumor cell lines. (A) Graph depicting ranked Pearson correlation score between the CERES dependency score for each tested gene in the Cancer Dependency Map Project and the ING2 CERES dependency score. (B) Working model for a ING2 biomarker-based therapeutic strategy in NSCLC. Tumors expressing ING2 are more likely to depend on the oncogenic properties of mSin3A/HDAC for survival and could be targeted by suberoyl anilide hydroxamic acid (SAHA). Tumors that lose ING2 expression cannot be treated by SAHA, but can be treated by mSin3A direct inhibitors (mSin3Ai) or HDAC1/2 inhibitors (s.HDACi).
Figure 3. Co-dependency between ING2 and mSin3A/HDAC complex members in tumor cell lines. (A) Graph depicting ranked Pearson correlation score between the CERES dependency score for each tested gene in the Cancer Dependency Map Project and the ING2 CERES dependency score. (B) Working model for a ING2 biomarker-based therapeutic strategy in NSCLC. Tumors expressing ING2 are more likely to depend on the oncogenic properties of mSin3A/HDAC for survival and could be targeted by suberoyl anilide hydroxamic acid (SAHA). Tumors that lose ING2 expression cannot be treated by SAHA, but can be treated by mSin3A direct inhibitors (mSin3Ai) or HDAC1/2 inhibitors (s.HDACi).
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Table 1. ING2a status in human lung cancer.
Table 1. ING2a status in human lung cancer.
Tissue TypeOriginMutation Type/Expression ChangeMethodsPositionCodingFrequencyRef.
Lung cancerCell linesDownregulationRT-QPCR 7/8[49]
PatientSubstitutionPCR-SSCP, SequencingLZL (13)Ala -> Ala6/31
PatientSubstitutionPCR-SSCP, Sequencing6bp downstream exon 1 6/31
Lung cancerCell linesDownregulationQ-PCR 2/2[50]
Lung cancerPatientDownregulationIHC 70/120[62]
PatientNo LOHMM 0/12
PatientSubstitutionSequencing39Ala -> Ala21/22
PatientDownregulationQ-PCR 15/22
No changeQ-PCR 6/22
UpregulationQ-PCR 1/22
NSCLCPatientDownregulation, aberrantly localizationIHC, RT-PCR, WB 21/64 (32.8%)[63]
AdenocarcinomaPatientDownregulation, aberrantly localizationIHC, RT-PCR, WB 11/24 (45.8%)
Squamous cell carcinomaPatientDownregulation, aberrantly localizationIHC, RT-PCR, WB 10/38 (26.3%)
NSCLCPatientChromosomal deletion cDNA Microarray4q34.2–q35.1 2/10 (20%)[64]
Abbreviations: IHC—Immunohistochemistry; LOH—Loss of Heterozygosity; LZL—Leucine Zipper Like domain; MM—Microsatellite Marker; NSCLC—Non Small Cell Lung Carcinoma; PCR–SSCP—Polymerase Chain Reaction–Single Strand Conformation Polymorphism; RT–PCR—Retro transcription–Polymerase Chain Reaction; Q-PCR—Quantitative-Polymerase Chain Reaction; and WB—Western Blot.

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MDPI and ACS Style

Blondel, A.; Benberghout, A.; Pedeux, R.; Ricordel, C. Exploiting ING2 Epigenetic Modulation as a Therapeutic Opportunity for Non-Small Cell Lung Cancer. Cancers 2019, 11, 1601. https://doi.org/10.3390/cancers11101601

AMA Style

Blondel A, Benberghout A, Pedeux R, Ricordel C. Exploiting ING2 Epigenetic Modulation as a Therapeutic Opportunity for Non-Small Cell Lung Cancer. Cancers. 2019; 11(10):1601. https://doi.org/10.3390/cancers11101601

Chicago/Turabian Style

Blondel, Alice, Amine Benberghout, Rémy Pedeux, and Charles Ricordel. 2019. "Exploiting ING2 Epigenetic Modulation as a Therapeutic Opportunity for Non-Small Cell Lung Cancer" Cancers 11, no. 10: 1601. https://doi.org/10.3390/cancers11101601

APA Style

Blondel, A., Benberghout, A., Pedeux, R., & Ricordel, C. (2019). Exploiting ING2 Epigenetic Modulation as a Therapeutic Opportunity for Non-Small Cell Lung Cancer. Cancers, 11(10), 1601. https://doi.org/10.3390/cancers11101601

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